Chemical Exchange Reaction of Glycinatocopper(II) Complex in Water: A Theoretical Study

Complexes of arzanol with a Cu2+ ion: a DFT study

Arzanol (C₂₂H₂₆O₇) is a naturally occurring acylphloroglucinol largely responsible for the anti-inflammatory, anti-oxidant, antibiotic and antiviral activities of Helichrysum italicum. Like all acylphloroglucinols, the molecule contains a carboxylic substituent (-COR group); for arzanol, this is a -COCH₃ group. The molecule is further characterized by the presence of an α-pyrone ring bonded in meta to -COR through a methylene bridge, and of a prenyl chain bonded to the other meta position. The molecule can form up to three intramolecular hydrogen bonds (IHB) simultaneously, and their presence and patterns are the major stabilizing factors. This work considers complexes of representative conformers of arzanol with a Cu²⁺ ion, taking into account the different possibilities for the binding of the Cu²⁺ ion to the electron-density rich sites of the molecule and including simultaneous coordination to two geometrically suitable sites. Calculations were performed at the DFT/B3LYP level, using the 6-31+G(d,p) basis set for the C, O and H atoms and the LANL2DZ pseudopotential for the Cu²⁺ ion. Interaction energies show preference for simultaneous binding of Cu²⁺ to two sites. Simultaneous binding to the O of a phenol OH neighboring the prenyl chain and to the π bond of the prenyl chain appears to be the most favorable option, followed by simultaneous binding to the sp² O of the α-pyrone ring and the O of the phenol OH ortho to -COR on the side of the α-pyrone ring. The charge of the Cu²⁺ ion is reduced to +1 or slightly less in the complexes, which is consistent with the molecules' antioxidant (reducing) ability. Graphical abstract The copper ion prefers to attach to two sites of the arzanol molecule simultaneously. The arzanol molecule reduces the charge of the copper ion from +2 to +1 by transferring an electron to it; it becomes a radical molecular cation. The distribution of the unpaired electron in the molecule (as highlighted by the spin density maps) depends on the site/s to which the Cu²⁺ ion binds and on the molecule's conformer.

Combined Ab Initio Computational and Infrared Spectroscopic Study of the cis- and trans-Bis(glycinato)copper(II) Complexes in Aqueous Environment

The cis- and trans-bis(glycinato)copper(II) complexes in aqueous solution have been investigated by means of a combined theoretical and experimental approach. The conducted quantum mechanical charge field molecular dynamics (QMCF-MD) studies, being the first quantum mechanical simulations of organometallic complexes by this method, yielded accurate structural details of the investigated isomers as well as novel dynamic data, which has successfully been confirmed and extended by subsequent mid-infrared measurements. The spectroscopic results, critically assessed by adjacent multivariate data analysis, indicate an isomeric stability at ambient conditions, vanishing at elevated temperatures.

Interactions of Zn(II) with single and multiple amino acids. Insights from density functional and ab initio calculations

Calculations were performed to study the interactions of metal ions (M) with (multiple) amino acids (AA) and fill the gap between single AA and proteins. A complete conformational search results in nine and eleven ZnGly isomers at B3P86 and MP2 levels, respectively, and four populated conformers of glycine are responsible for production of these isomers. For all M, the isomers via the OO and NO binding modes are the main constituents, and the OO mode is favored by stronger electrostatic interactions. Binding with more glycines causes larger structural distortions, improves relative stabilities of monodentate binding isomers and generates new binding modes (e.g. ZnB(III) via only the hydroxyl group). The scaling factor of Zn(Gly)(n) structures, the ratio of its binding affinity versus the sum of comprising ZnGly isomers, is linear with glycine number (n), and the linear relationship may not be altered by mutations of glycines and M. It thus allows to estimate M(AA)(n) binding affinities (n ≥ 2) from the comprising MAA structures and analyze their structures with kinetic methods. The DFT and MP2 results become comparable by increasing metal coordination, e.g. the ZnB(III) versus ZnA(I) (zwitterionic) relative energy differs by 41.9 kcal mol(-1) at B3P86 and MP2 levels and is close by addition of three water molecules (4.1 kcal mol(-1)). The presence of water solvent improves the relative stabilities of monodentate binding isomers and results in a broader conformational distribution.

Structural and Electronic Characterization of the Complexes Obtained by the Interaction between Bare and Hydrated First-Row Transition-Metal Ions (Mn2+, Fe2+, Co2+, Ni2+, Cu2+, Zn2+) and Glycine

The complexes formed by the simplest amino acid, glycine, with different bare and hydrated metal ions (Mn(2+), Fe(2+), Co(2+), Ni(2+), Cu(2+), Zn(2+)) were studied in the gas phase and in solvent in order to give better insight into the field of the metal ion-biological ligand interactions. The effects of the size and charge of each cation on the organization of the surrounding water molecules were analyzed. Results in the gas phase showed that the zwitterion of glycine is the form present in the most stable complexes of all ions and that it usually gives rise to an eta(2)O,O coordination type. After the addition of solvation sphere, a resulting octahedral arrangement was found around Ni(2+), Co(2+), and Fe(2+), ions in their high-spin states, whereas the bipyramidal-trigonal (Mn(2+) and Zn(2+)) or square-pyramidal (Cu(2+)) geometries were observed for the other metal species, according to glycine behaves as bi- or monodentate ligand. Despite the fact that the zwitterionic structure is in the ground conformation in solution, its complexes in water are less stable than those obtained from the canonical form. Binding energy values decrease in the order Cu(2+) > Ni(2+) > Zn(2+) approximately Co(2+) > Fe(2+) > Mn(2+) and Cu(2+) > Ni(2+) > Mn(2+) approximately Zn(2+) > Fe(2+) > Co(2+) for M(2+)-Gly and Gly-M(2+) (H(2)O)(n) complexes, respectively. The nature of the metal ion-ligand bonds was examined by using natural bond order and charge decomposition analyses.